good point. there's something going on with the Starbase 12 set where it's being twitchy. i haven't swapped starbases, but I stay a mile away from SB12 so my game doesn't crash.
oh, I might have a partial solution for you, based on the trouble we've had with the Kessok Homeworld set.
I put the upgraded Kessok heavy and light in my beta testing install (leaving the stockers with my tweaked hardpoints in my play install), and promptly got a CTD (crash to Desktop) every time I tried to warp to the Junkyard. after talking it over with Tiq, we figured it out and applied it all around; the original model's vox was still in the way, and since it was read only like a lot of the stock stuff, cleanout programs and so on would IGNORE it, it had to be done by hand. I'm betting things are misreading the vox for the stock starbase, which has a "read only" switch on it.